05331772

j

05331772 Alam, Sadaf R. Agarwal, Pratul K. Smith, Melissa C. Vetter, Jeffrey S. Caliga, David Using FPGA devices to accelerate biomolecular simulations. Computer 40, No. 03, 66-73 (2007). 2007 IEEE Computer Society EN reconfigurable computing fpgas biomolecular simulations

doi:10.1109/MC.2007.108

Summary: A field-programmable gate array implementation of a molecular dynamics simulation method reduces the microprocessor time-to-solution by a factor of three while using only high-level languages. The application speedup on FPGA devices increases with the problem size. The authors use a performance model to analyze the potential of simulating large-scale biological systems faster than many cluster-based supercomputing platforms.